Results 1 - 20 of 38 are showing below:
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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
12800 | 3' | -53.3 | NC_003387.1 | + | 3007 | 0.67 | 0.768755 |
Target: 5'- uCCGCGUUgCGCGUGUggACGUUugaagaucccgaGGUGAa -3' miRNA: 3'- -GGCGCGAaGUGCGCG--UGCAA------------UCACUg -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 3572 | 0.66 | 0.825418 |
Target: 5'- gCGCGCUggugugcaccgaCACGUguacagGCGCGacgGGUGACa -3' miRNA: 3'- gGCGCGAa-----------GUGCG------CGUGCaa-UCACUG- -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 4564 | 0.69 | 0.649892 |
Target: 5'- cCUGCGCgacCGCGCGgGCcucGGUGGCg -3' miRNA: 3'- -GGCGCGaa-GUGCGCgUGcaaUCACUG- -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 4660 | 0.66 | 0.788954 |
Target: 5'- -gGCGCUUCGgG-GCGCGguagcgGGUGAa -3' miRNA: 3'- ggCGCGAAGUgCgCGUGCaa----UCACUg -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 4832 | 0.68 | 0.683142 |
Target: 5'- aCGCGCUugUCggcgACGUGCACGccgAGaUGGCg -3' miRNA: 3'- gGCGCGA--AG----UGCGCGUGCaa-UC-ACUG- -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 4928 | 0.68 | 0.694141 |
Target: 5'- cCCgGCGCggcgUCGCGCGUuguCGaacGUGACa -3' miRNA: 3'- -GG-CGCGa---AGUGCGCGu--GCaauCACUG- -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 5913 | 0.68 | 0.694141 |
Target: 5'- uUGCGCcgcUUACGCGC-CGggGGcUGACa -3' miRNA: 3'- gGCGCGa--AGUGCGCGuGCaaUC-ACUG- -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 7904 | 0.74 | 0.370873 |
Target: 5'- cUCGUGCc-CGCGCGCACGU--GUGGCc -3' miRNA: 3'- -GGCGCGaaGUGCGCGUGCAauCACUG- -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 14438 | 0.67 | 0.747979 |
Target: 5'- cCUGgGCUcguUCACGCGCACGcaugGGUuccguuGGCu -3' miRNA: 3'- -GGCgCGA---AGUGCGCGUGCaa--UCA------CUG- -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 15786 | 0.66 | 0.788954 |
Target: 5'- gUCGCGCUUUAgcgugaucauguCGCGCugGgc--UGACg -3' miRNA: 3'- -GGCGCGAAGU------------GCGCGugCaaucACUG- -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 15856 | 0.66 | 0.827258 |
Target: 5'- gCGgGCUgCAacgUGCGCGCGUacauGUGGCu -3' miRNA: 3'- gGCgCGAaGU---GCGCGUGCAau--CACUG- -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 17162 | 0.68 | 0.694141 |
Target: 5'- cCCGCGCUgagCugGUGCGCcgccugGGcGGCg -3' miRNA: 3'- -GGCGCGAa--GugCGCGUGcaa---UCaCUG- -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 19661 | 0.71 | 0.550308 |
Target: 5'- gCgGCGCUUgGCGCGCACcc-GGUGcgGCa -3' miRNA: 3'- -GgCGCGAAgUGCGCGUGcaaUCAC--UG- -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 20503 | 0.73 | 0.427315 |
Target: 5'- gUCGCGC-UCGCGCaGCGCGgcgucgcgcucgucGGUGACg -3' miRNA: 3'- -GGCGCGaAGUGCG-CGUGCaa------------UCACUG- -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 21522 | 0.67 | 0.768755 |
Target: 5'- aCGCGaUUCAgGCGCGCGUcgcGUucGACg -3' miRNA: 3'- gGCGCgAAGUgCGCGUGCAau-CA--CUG- -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 23091 | 0.69 | 0.649892 |
Target: 5'- cUCGCGCcgUCGCGCGUGCGgugcaccGACu -3' miRNA: 3'- -GGCGCGa-AGUGCGCGUGCaauca--CUG- -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 24654 | 0.7 | 0.583212 |
Target: 5'- gCUGCGCgaggUCGCcaGCGC-CGagGGUGACu -3' miRNA: 3'- -GGCGCGa---AGUG--CGCGuGCaaUCACUG- -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 29321 | 0.69 | 0.649892 |
Target: 5'- gCCGCGCUUguCGgGCAUGUUcagcucgucGGcGACc -3' miRNA: 3'- -GGCGCGAAguGCgCGUGCAA---------UCaCUG- -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 29877 | 0.67 | 0.737404 |
Target: 5'- gUGCGCcUUGCGCGCcgaucGCGUUGGcGAUc -3' miRNA: 3'- gGCGCGaAGUGCGCG-----UGCAAUCaCUG- -5' |
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12800 | 3' | -53.3 | NC_003387.1 | + | 30942 | 0.68 | 0.726722 |
Target: 5'- gCCGCGgUcaacuugagCGCGaacaGCGCGUcGGUGGCg -3' miRNA: 3'- -GGCGCgAa--------GUGCg---CGUGCAaUCACUG- -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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